I was poking around in the Adobe sponsored Adobe Connect User Community and found some information about recording problems in their forums. If you are still having recording problems and are running your own installation of Adobe Connect, you might want to check out the forum topic at http://www.connectusers.com/forums/cucbb/viewtopic.php?id=686.
Out of sync recordings had been an issue at Penn State in the past, but we haven't heard from anyone that they are still having this problem for quite a while. We do try to stay on top of the patches Adobe releases and get them installed in a timely manner.